TFARM

DOI: 10.18129/B9.bioc.TFARM    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see TFARM.

Transcription Factors Association Rules Miner

Bioconductor version: 3.8

It searches for relevant associations of transcription factors with a transcription factor target, in specific genomic regions. It also allows to evaluate the Importance Index distribution of transcription factors (and combinations of transcription factors) in association rules.

Author: Liuba Nausicaa Martino, Alice Parodi, Gaia Ceddia, Piercesare Secchi, Stefano Campaner, Marco Masseroli

Maintainer: Liuba Nausicaa Martino <liuban.martino at gmail.com>

Citation (from within R, enter citation("TFARM")):

Installation

To install this package, start R (version "3.5") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("TFARM")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("TFARM")

 

PDF R Script Transcription Factor Association Rule Miner
PDF   Reference Manual
Text   NEWS

Details

biocViews BiologicalQuestion, Infrastructure, Software, StatisticalMethod, Transcription
Version 1.4.0
In Bioconductor since BioC 3.6 (R-3.4) (1.5 years)
License Artistic-2.0
Depends R (>= 3.4)
Imports arules, fields, GenomicRanges, graphics, grDevices, stringr, methods, stats
LinkingTo
Suggests BiocStyle, knitr, plyr
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package TFARM_1.4.0.tar.gz
Windows Binary TFARM_1.4.0.zip (32- & 64-bit)
Mac OS X 10.11 (El Capitan) TFARM_1.4.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/TFARM
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/TFARM
Package Short Url http://bioconductor.org/packages/TFARM/
Package Downloads Report Download Stats

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: